Differential gene expression profiles in the venom gland/sac of Eumenes pomioformis (Hymenoptera: Eumenidae)

Ji Hyeong Baek,Si Hyeock Lee 한국응용곤충학회 2009 한국응용곤충학회 학술대회논문집 Vol.2009 No.10

To determine differential gene expression profiles in the venom gland and sac (gland/sac) of a solitary hunting wasp species, Eumenes pomiformis Fabricius (1781), a subtractive cDNA library was constructed by suppression subtractive hybridization. A total of 541 expressed sequence tags (EST) were clustered and assembled into 102 contigs. In total, 37 genes were found from the library by BLASTx search and manual analysis. A eumenitin-like venom peptide, EpVP1, occupied ca. 26% of the library. A novel venom peptide, EpDTX, shared sequence similarity with trypsin inhibitors and dendrotoxin-like venom peptides known as K+ channel blockers, implying it could be responsible for the paralysis of prey. As well as phospholipase A2 and hyaluronidase known to be main components of wasp venoms, several contigs encoding enzymes, including metalloendopeptidases and a decarboxylase likely involved in the processing and activation of venomous proteins, peptides, and neurotransmitters, were also isolated from the library. The presence of a gene encoding insulin-like growth factor binding protein suggests that solitary hunting wasps might control the prey to stay in larval stage by their venom. The abundance of these venom components in the venom gland/sac and alimentary canal was confirmed by quantitative real-time PCR.

Differential Gene Expression Profiles in the Salivary Gland of Orius laevigatus (Hemiptera: Anthocoridae)

Ji Hyeong Baek,Si Hyeock Lee 한국응용곤충학회 2010 한국응용곤충학회 학술대회논문집 Vol.2010 No.10

To determine differential gene expression profiles in the salivary gland of a predatory flower bug species, Orius laevigatus Fieber, a subtractive cDNA library was constructed by suppression subtractive hybridization. The major transcripts encoding trypsins (28.6% of the total ESTs) were eliminated from the library and then remaining salivary gland-specific genes were searched. A total of 513 expressed sequence tags (ESTs) were clustered and assembled into 129 contigs (64 multiple sequences and 65 singletons). About 58% were matched with insect genes. In total, 38 genes (179 ESTs) were found from the library by BLASTx search. A hemolysin-like protein occupied ca. 8% (41 ESTs) of the library. Hemolysin is known to destruct cells including blood cells by forming pores on the cell membrane. A hemolysin-like salivary protein of O. laevigatus might be hemolytic against the prey cells, thereby allowing O. laevigatus to facilitate feeding. Several contigs encoding lipase was also identified from the salivary gland-specific library. Discovery of salivary gland-specific genes should promote further studies on biologically active components in the saliva of O. laevigatus.

Subtractive Library와 DNA 유전자칩을 이용한 흑모와 백모의 유전자 차이 규명

윤기성 ( Ki Seoung Yoon ),박동재 ( Dong Jae Park ),박지영 ( Jee Young Park ),나건연 ( Gun Yeon Na ),이석종 ( Seok Jong Lee ),김도원 ( Do Won Kim ),정상립 ( Sang Lip Chung ),김문규 ( Moon Kyu Kim ) 대한피부과학회 2004 대한피부과학회지 Vol.42 No.5

볼락(Sebastes inermis)의 성장단계별 차등발현 유전자 탐색

장요순 ( Yo Soon Jang ) 한국어류학회 2011 韓國魚類學會誌 Vol.23 No.1

볼락의 성장단계에 따른 차등발현 유전자를 탐색하기 위하여 6개월령 및 18개월령 근육조직을 사용하여 subtracted cDNA library를 제작하였고, 각각의 연령에서 발현량 차이를 나타낸 202개의 cDNA 단편을 확보하였으며, 발현량 차이가 뚜렷한 32개의 cDNA 클론은 성장단계별 특이발현 후 보유전자로 선발하여 염기서열을 분석하였다. Myosin, adenylate kinase, calsequestrin, dystrobrevin beta, diphosphate kinase 유전자는 6개월령 근육조직에서 발현량이 많았으며, desmin, TGFBR2 (transforming growth factor-beta receptor), creatine kinase (muscle type), cathepsin D 유전자는 18개월령 근육조직에서 발현량이 많았다. 볼락의 성장초기와 성장 절정기에서 차등발현 양상을 나타낸 유전자는 6, 18, 30, 42개월령 근육조직에서 연령 증가에 따른 발현양상을 분석하였으며, dystrobrevin beta와 diphosphate kinase-Z1은 6개월령 이후에는 발현량이 급격히 감소하여 18개월령, 30개월령 및 42개월령에서는 발현량이 극히 적었으며, creatine kinase (muscle type)와 cathepsin D 유전자는 연령이 증가함에 따라 발현량이 증가되어 18개월령 이후, 30개월령과 42개월령 근육조직에서도 발현량이 많았다. 이와 같이 성장단 계에 따른 차등발현 유전자를 탐색하고 연령 증가에 따른 발현양상을 비교·분석한 결과로부터 본 연구에서는 어류의 성장 초기단계 근육조직에서는 근육수축 관련 유전자가 많이 발현되고, 성장 절정기에는 근육 내 에너지 양 조절관련 유전자가 많이 발현되는 것을 확인하였다. Expression analysis of development-related genes was conducted using differential screening of 6-month-old [18M (-), 6M-18M] specific and 18-month-old [6M (-), 18M-6M] specific subtracted cDNA libraries constructed by subtractive hybridization using skeletal muscle of 6- and 18- month-old dark-banded rockfish Sebastes inermis. A total 202 cDNA clones displaying different expression levels in each stage were obtained; among them, 32 clones showing up-regulation were finally selected for further expression analysis. We sequenced the clones and analyzed individual sequences. Genes expressed specifically in 6-month-old skeletal muscle were identified as myosin, adenylate kinase, calsequestrin, dystrobrevin beta, and diphosphate kinase-Z1. Genes showing strong expression in 18-month-old rockfish were identified as desmin, TGFBR2 (transforming growth factorbeta receptor), muscle-type creatine kinase, and cathepsin D. Expression of these genes was checked further in 6-18-30-42 month-old dark-banded rock fish. Rapid reduction of expression was observed in dystrobrevin beta and diphosphate kinase. However, expression of creatine kinase (muscle type) and cathepsin D increased as dark-banded rockfish grew, and remained even after 18 months. The results reported here demonstrate that genes related to muscles contract are expressed at an early stage of development, and genes controlling energy in muscles are predominantly expressed at a late developmental stage.

Gene Expression Analysis of Phanerochaete chrysosporium During the Transition Time from Primary Growth to Secondary Metabolism

Mingfeng Jiang,Xiao Li,Liang Zhang,Hong Feng,Yizheng Zhang 한국미생물학회 2009 The journal of microbiology Vol.47 No.3

In order to identify the secondary metabolism-related genes of Phanerochaete chrysosporium growing under pure O2 and nitrogen-limited conditions, 2322 ESTs fragments originated from two suppression-subtractive libraries were analyzed using the cDNA microarray technique. Ten significantly upregulated and 22 significantly downregulated genes were identified in the 72 h cultured mycelia RNA samples (secondary metabolism). According to qPCR, 16 out of the 32 genes were expressed differently in secondary metabolism. Transcripts of secondary metabolism up-regulation genes exhibited homologies to aryl-alcohol dehydrogenase (SSh1554), ABC transporter gene (SSH624), chitinase (SSH963), heat shock protein (SSH1193), catalase (SSH317), cytochrome P450 (SSH331), glucosamine-6-phosphate isomerase (SSH611), and alkyl hydroperoxide reductase (SSH362) genes. Ninety-three genes could be classified by Eukaryotic Orthologous Groups (KOG). Among the genes assigned a function, gene expression patterns were different in both secondary metabolism and primary metabolism. In the group of “Cellular Processes and Signaling,” most of the genes were from the primary metabolism library. On the other hand, genes from the secondary metabolism library were found mainly in the “Information Storage” and “Processing and Poorly Characterized” groups. Based on the KOG functional assignments, six genes belong to the ubiquitin system, and all of them were from primary metabolism phase. The presence of the H2O2-relevant genes suggested that parts of the genes expressed in 72 h might be involved in the ligninolytic process during secondary metabolism of P. chrysosporium.

Screening Peptides Binding Specifically to Colorectal Cancer Cells from a Phage Random Peptide Library

Wang, Jun-Jiang,Liu, Ying,Zheng, Yang,Liao, Kang-Xiong,Lin, Feng,Wu, Cheng-Tang,Cai, Guan-Fu,Yao, Xue-Qing Asian Pacific Journal of Cancer Prevention 2012 Asian Pacific journal of cancer prevention Vol.13 No.1

The aim of this study was to screen for polypeptides binding specifically to LoVo human colorectal cancer cells using a phage-displayed peptide library as a targeting vector for colorectal cancer therapy. Human normal colorectal mucous epithelial cells were applied as absorber cells for subtraction biopanning with a c7c phage display peptide library. Positive phage clones were identified by enzyme-linked immunosorbent assay and immunofluorescence detection; amino acid sequences were deduced by DNA sequencing. After 3 rounds of screening, 5 of 20 phage clones screened positive, showing specific binding to LoVo cells and a conserved RPM motif. Specific peptides against colorectal cancer cells could be obtained from a phage display peptide library and may be used as potential vectors for targeting therapy for colorectal cancer.

Differential gene expression profiles in the venom gland/sac of Orancistrocerus drewseni (Hymenoptera: Eumenidae)

Baek, Ji Hyeong,Woo, Tae Ha,Kim, Chang Bae,Park, Jong Hwa,Kim, Hyojoong,Lee, Seunghwan,Lee, Si Hyeock Wiley Subscription Services, Inc., A Wiley Company 2009 Archives of Insect Biochemistry and Physiology Vol.71 No.4

<P>To determine differential gene expression profiles in the venom gland and sac (gland/sac) of a solitary hunting wasp species, Orancistrocerus drewseni Saussure (1857), a subtractive cDNA library was constructed by suppression subtractive hybridization. A total of 498 expressed sequence tags (EST) were clustered and assembled into 205 contigs (94 multiple sequences and 111 singletons). About 65% (134) of the contigs had matched BLASTx hits (E≤10<SUP>−4</SUP>). Among these, 115 contigs had similarity to proteins with assigned molecular function in the Gene Ontology database, and most of them (112 contigs, 83%) were homologous to genes from Hymenoptera, particularly to Apis mellifera (98 contigs). The contigs encoding hyaluronidase and phospholipase A2, known to be main components of wasp venoms, were found in high frequencies (27 and 4%, respectively, as judged by the number of ESTs) in the gene ontology category of catalytic activity. Full-length open reading frames of hyaluronidase and phospholipase A2 were characterized and their abundance in the venom gland/sac was confirmed by quantitative real-time PCR. Several contigs encoding enzymes, including zinc-metallopeptidases that are likely involved in the processing and activation of venomous proteins or peptides, were also identified from the library. Discovery of venom gland/sac-specific genes should promote further studies on biologically active components in the venom of O. drewseni. © 2009 Wiley Periodicals, Inc.</P>

The venom composition of the Cambodia wasp Vespa tropica resolved by the analyses of venom gland-specific EST and proteome

Jung Hun Oh,Ji Hyeong Baek,Si Hyeock Lee 한국응용곤충학회 2011 한국응용곤충학회 학술대회논문집 Vol.2011 No.05

Vespa tropica is a tropical species of Vespa found in Southeast Asia. V. tropica wasps were collected from rural provinces of Cambodia, and their total RNA and venom were extracted on site. To search for novel substances in venom, a subtracted cDNA library specific to the venom gland and sac was constructed and venom protein was analyzed by nano-LC-MS/MS. A total of 1127 expressed sequenced sequence tags (ESTs) were sequenced and assembled into 572 contigs (152 multiple sequences and 420 singletons). The short venom peptides were identified to be encoded from 5 contigs (43 ESTs) by proteomic analysis. In addition, putative antimicrobial peptides together with typical major components of wasp venom (venom allergen 5, mastoparan-like peptide, serine protease, and hyaluronidase) were identified in the EST Library. Additional in-depth annotation would be required for further characterization of many unidentified genes found in the EST library.

Construction of the venom gland-specific EST library of Cambodian solitary wasp Rhynchium brunneum

Jung Hun Oh,Ji Hyeong Baek,Si Hyeock Lee 한국응용곤충학회 2011 한국응용곤충학회 학술대회논문집 Vol.2011 No.10

Rhynchium brunneum is a widely distributed wasp species in South Eastern Asia. R. brunneum females were collected from rural provinces of Cambodia, and their total RNA and venom were extracted on site. To search for novel substances in venom, a subtracted cDNA library specific to the venom gland and sac was constructed. A total of 1118 expressed sequenced sequence tags (ESTs) were sequenced and assembled into 349 contigs (107 multiple sequences and 242 singletons). In this result, we found the putative neurotoxin (DTX protein precursor), antimicrobial peptides (teratocyte-specific caboxylesterase) together with typical major components of wasp venom (venom hyaluronidase, arginine kinase, phospholipase A2, serine/theonine protein phosphatase). Additional in-depth annotation would be required for further characterization of many unidentified genes found in the EST library.

Differential Gene Expression Profiles of Cypermethrin-resistant Plutella xylostella (Lepidoptera: Plutellidae)

Ji Hyeong Baek,Si Hyeock Lee 한국응용곤충학회 2008 한국응용곤충학회 학술대회논문집 Vol.2008 No.05

To determine differential gene expression profiles in a cypermethrin-resistant strain (CR) of diamondback moth, Plutella xylostella Linnaeus (1758), a subtractive cDNA library was constructed by suppression subtractive hybridization. A total of 1196 expressed sequence tags (EST) were clustered and assembled into 579 contigs (100 multiplets and 479 singletons). About 46% (267) of 579 contigs had the matched BLASTx hits (E ≤ 10-5). Among these, 143 contigs had similarity to proteins with assigned molecular function in the Functional Catalogue database, and most of them (86%) were homologous to the genes from insects, particularly to Lepidoptera (56%). The contigs encoding carboxylesterase and cytochrome P450 known to be involved in the insecticide resistance were found in the library. They were identified as pxest3, pxest4, and CYP9G2 gene by 5' and 3' RACE. Among these, pxest4 was determined to be 2-fold over-transcribed in the CR strain by qrtPCR. Several contigs encoding enzymes including cytochrome oxidase subunit I that are likely involved in the insecticide resistance were also identified from the library. Discovery of the genes specific to cypermethrin resistance should promote further studies on the molecular mechanisms of insecticide resistance in P. xylostella.